introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

8 rows where transcript_id = 32796612

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
183367961 GT-AG 0 1.000000099473604e-05 441 rna-XM_034725542.1 32796612 1 30207205 30207645 Setaria viridis 4556 CAG|GTTAGTACTG...TAACTTATAATG/TTCATTCTGATA...ATCAG|GTT 0 1 17.938
183367962 GT-AG 0 1.000000099473604e-05 80 rna-XM_034725542.1 32796612 2 30206639 30206718 Setaria viridis 4556 AAG|GTAAAAACGA...TTTTCTCTAACC/TTTTCTCTAACC...TGCAG|GTT 0 1 31.088
183367963 GT-AG 0 0.0033584154101239 226 rna-XM_034725542.1 32796612 3 30205348 30205573 Setaria viridis 4556 GAG|GTATGCATGT...CGCCACTTGATA/CACTTGATAATT...ACTAG|GTT 0 1 59.903
183367964 GT-AG 0 0.0007987580172698 229 rna-XM_034725542.1 32796612 4 30204821 30205049 Setaria viridis 4556 AAT|GTATGTGATC...ATGATTTTATTC/ATTTTATTCAAT...TTCAG|GTC 1 1 67.965
183367965 GC-AG 0 1.000000099473604e-05 90 rna-XM_034725542.1 32796612 5 30204487 30204576 Setaria viridis 4556 AAG|GCATGTTCTA...TTTTTCTGAAAT/TTTTTTCTGAAA...TCTAG|GTA 2 1 74.567
183367966 GT-AG 0 1.000000099473604e-05 684 rna-XM_034725542.1 32796612 6 30203595 30204278 Setaria viridis 4556 AAG|GTAAATCTAA...TTCTTTTTATAG/CTTCTTTTTATA...TGCAG|ATG 0 1 80.195
183367967 GT-AG 0 3.573128128896095e-05 125 rna-XM_034725542.1 32796612 7 30203391 30203515 Setaria viridis 4556 CTG|GTACGTAATA...TTATTTTTACAC/CTTATTTTTACA...TGCAG|ACA 1 1 82.332
183367968 GT-AG 0 1.000000099473604e-05 1005 rna-XM_034725542.1 32796612 8 30202135 30203139 Setaria viridis 4556 AAG|GTGAGATTTG...AACTTTTTAAAA/CATGGATTTATT...TGCAG|ACA 0 1 89.123

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);